Dominik Hrebik
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dhrebik.bsky.social
Dominik Hrebik
@dhrebik.bsky.social
Postdoc @JohnBriggsGroup @MaxPlanck Institute of Biochemistry in Martinsried
| PhD from PlevkaLab | #StructuralBiology of #Viruses #HIV | #CryoEM | #Memes
Twitter/X: @F4ustus
Pinned
I am very happy to announce that we solved the in-virus #cryoEM structure of the #HIV matrix protein. The structure helped us to resolve a long mystery in HIV biology. A🧵1/5
Read more in Nature: www.nature.com/articles/s41... 🧪
Reposted by Dominik Hrebik
TomoCPT is a transformer-based solution that reformulates particle detection in cryo-ET as a centroid-prediction task using Gaussian labels #CryoET #ParticlePicking #SubTomogramAveraging doi.org/10.1107/S205...
March 5, 2025 at 2:47 PM
Reposted by Dominik Hrebik
Reposted by Dominik Hrebik
An Asgard archaeon with internal membrane compartments

Brilliant study led by @fmacleod.bsky.social and Andriko von Kügelgen. Tight collaboration with @buzzbaum.bsky.social and lab. Congrats to all authors!

www.biorxiv.org/content/10.1...
November 7, 2025 at 10:44 AM
Reposted by Dominik Hrebik
Glad to see our antibody design paper finally out in
@nature.com
(and congrats to lead authors and everyone involved )!
At Xaira we are excited about pushing antibody design further to bind harder targets and make drugs for unmet medical needs.
Paper:
www.nature.com/articles/s41...
November 5, 2025 at 8:20 PM
Reposted by Dominik Hrebik
At some point, Doppio will replace relion's gui. Already you can do more in Doppio than in relion! 🤩
November 4, 2025 at 6:14 PM
Reposted by Dominik Hrebik
Celebrate #NationalCatDay with the cats of RCSB PDB!
October 29, 2025 at 4:55 PM
Reposted by Dominik Hrebik
We are looking for a computational postdoc to work with us on new optimisation algorithms to make #RELION even better. Join our bubbly team at the @mrclmb.bsky.social in Cambridge, UK. 🤗 RTs appreciated.

mrc.tal.net/vx/appcentre...
Quick Check Needed
mrc.tal.net
October 29, 2025 at 9:17 AM
Reposted by Dominik Hrebik
Measurement of atomic scattering factors by cryo-electron microscopy www.biorxiv.org/content/10.1101/2025.10.24.683059v1 #cryoem
October 25, 2025 at 10:03 AM
Reposted by Dominik Hrebik
A Review BMC Biology from the Mechanobiology Collection introduces the fundamental concepts of curvature, discusses its effect on cellular processes and behaviors at the cell-scale, and offers insights into emerging perspectives on the roles of curvature in biology.

#MedSky
Bending the rules: curvature’s impact on cell biology - BMC Biology
Curvature is a ubiquitous feature in biology, shaping structures at every scale and playing diverse roles in processes ranging from membrane dynamics to tissue organization. In this review, we first introduce briefly the fundamental concepts and mathematical principles of curvature. The second section explores how membrane curvature is perceived by molecular sensors and integrated into cellular responses. The third section examines the effects of curvature on cellular processes and behaviors at the cell-scale, providing a detailed discussion of the underlying mechanisms. Finally, we offer insights into emerging perspectives and highlight the future challenges in unraveling the multifaceted roles of curvature in biology.
bit.ly
October 15, 2025 at 8:00 PM
Reposted by Dominik Hrebik
Icecream: High-Fidelity Equivariant Cryo-Electron Tomography www.biorxiv.org/content/10.1101/2025.10.17.682746v1 #cryoem
October 18, 2025 at 8:50 AM
Reposted by Dominik Hrebik
𝗖𝘂𝗿𝗶𝗼𝘂𝘀 𝗵𝗼𝘄 𝘄𝗲 𝘂𝘀𝗲 𝗵𝗶𝗴𝗵-𝘁𝗲𝗰𝗵 𝘁𝗼 𝗮𝗱𝘃𝗮𝗻𝗰𝗲 𝗼𝘂𝗿 𝗿𝗲𝘀𝗲𝗮𝗿𝗰𝗵?
Then join us at our Open Day and get exciting sneak peaks behind the scenes of one of Europe’s largest life science campuses in Martinsried.

Find out more (in German): mpi.lineupr.com/tdot/
September 25, 2025 at 2:23 PM
Reposted by Dominik Hrebik
Time for a thread!🧵 How different is the molecular organization of thylakoids in “higher” plants🌱? To find out, we teamed up with @profmattjohnson.bsky.social to dive into spinach chloroplasts with #CryoET ❄️🔬. Curious? ..Read on!

#TeamTomo #PlantScience 🧪 🧶🧬 🌾
elifesciences.org/articles/105...
1/🧵
September 25, 2025 at 6:00 PM
Reposted by Dominik Hrebik
gapTrick - Structural characterisation of protein-protein interactions using AlphaFold pubmed.ncbi.nlm.nih.gov/40985612/ #cryoem
September 24, 2025 at 10:31 PM
Reposted by Dominik Hrebik
hey bluesky 👋 visa hurdles mean I’m looking for opportunities outside the US. I’m a computational biologist (bacterial + phage genomics, postdoc in Koonin’s group @ NIH). I am interested in teaming up on funding apps. reach out if this resonates!
September 15, 2025 at 5:26 PM
Reposted by Dominik Hrebik
This one is a bit of a departure from the usual and definitely a work in progress!

We found that by using ab initio reconstruction at very high res, in very small steps, we could crack some small structures that had eluded us - e.g. 39kDa iPKAc (EMPIAR-10252), below.

Read on for details... 1/x
September 13, 2025 at 12:05 AM
Reposted by Dominik Hrebik
In new study led by Xiaohui Ju, we define how mutations to Chikungunya virus envelope proteins affect entry in human vs mosquito cells.

Sheds light on functional constraints & enables us to make loss-of-tropism mutants, which could be of use for vaccines.

www.biorxiv.org/content/10.1...
Determinants of human versus mosquito cell entry by the Chikungunya virus envelope proteins
Chikungunya virus (CHIKV) infects both humans and mosquitoes during its transmission cycle. How the virus’s envelope proteins mediate entry in cells from such different species is unclear. MXRA8 is a ...
www.biorxiv.org
September 4, 2025 at 11:12 PM
Reposted by Dominik Hrebik
🌎👩‍🔬 For 15+ years biology has accumulated petabytes (million gigabytes) of🧬DNA sequencing data🧬 from the far reaches of our planet.🦠🍄🌵

Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open.

doi.org/10.1101/2024...
September 3, 2025 at 8:39 AM
Reposted by Dominik Hrebik
First pre-print from the Lucas Lab led by Matthew Giammar and @joshdcryoem.bsky.social online today! We develop a new, extensible Python implementation of 2DTM and apply it to build pixel size optimization, constrained search and characterize molecular motions in situ www.biorxiv.org/content/10.1...
Leopard-EM: An extensible 2DTM package to accelerate in situ structural biology
The ability to generate high-resolution views of cells with cryogenic electron microscopy (cryo-EM) can reveal the molecular mechanisms of biological processes in their native cellular context. The re...
www.biorxiv.org
August 30, 2025 at 12:49 AM
Reposted by Dominik Hrebik
Sub-cellular chemical mapping in bacteria using correlated cryogenic electron and mass spectrometry imaging

Congrats Hannah Ochner and authors on this important paper! Strong collaboration with @kiranrpatil.bsky.social

www.biorxiv.org/cgi/content/...
@mrclmb.bsky.social @wellcometrust.bsky.social
August 31, 2025 at 6:44 PM
Reposted by Dominik Hrebik
Better ML for cryo-ET starts with better benchmarks.

We built a phantom cryo-ET dataset (~500 tomograms) + hosted a Kaggle challenge.

The result: community models beat expert tools.

Read more in the @natmethods.nature.com article that just came out:
🔗 doi.org/10.1038/s415...
A realistic phantom dataset for benchmarking cryo-ET data annotation - Nature Methods
A standardized, realistic phantom dataset consisting of ground-truth annotations for six diverse molecular species is provided as a community resource for cryo-electron-tomography algorithm benchmarki...
doi.org
August 26, 2025 at 2:22 PM
Reposted by Dominik Hrebik
Researchers have developed a #DeepLearning system called BioEmu that rapidly generates diverse protein conformations, enabling fast, accurate insights into protein flexibility and function.

Learn more this week in Science: https://scim.ag/3JdQVD4
August 14, 2025 at 6:05 PM
Reposted by Dominik Hrebik
New preprint: In situ Architecture of #Plasmodesmata.

Using #cryoET, #AlphaFold & proteomics, we uncover the native organization of plant intercellular nanopores.

🔗 doi.org/10.1101/2025...

🧪🧵1/n
#teamtomo #PlantScience #Physcomitrium #Arabidopsis #cryoEM
July 26, 2025 at 3:38 PM
Reposted by Dominik Hrebik
Director at Max Planck - a unique position! The Open Call for Expressions of Interest in Max Planck Directorships is open now and can be submitted by the 31st of October 2025. ➡️ mpg.de/directors - Please share the Open Call among potential candidates.
August 1, 2025 at 9:06 AM
Reposted by Dominik Hrebik
🥂This was the highlight of my year. The "instigators", led by local master of the ceremony @svobodalab.bsky.social will never forget the privilege of organizing it and i think every participant will treasure the experience forever ❤️ @nature.com @josiegz.bsky.social www.nature.com/articles/d41...
Scientific bedlam at the world’s weirdest and wildest research conference
Woodstock Bio2 + Night Science aimed to encourage collaborations through creativity. The walk-on music for presentations was fun, too.
www.nature.com
July 31, 2025 at 4:22 AM
Reposted by Dominik Hrebik
Please RT! Call for Fellows! If you’re a structural biologist and wanting to start your lab by applying for an external Fellowship then we at Imperial may be excited to host you. Synthetic biologists too.. Please submit expression of interest with details below 🙏

www.imperial.ac.uk/media/imperi...
www.imperial.ac.uk
July 28, 2025 at 4:13 PM